Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SOX2

Cell type

Cell type Class
Digestive tract
Cell type
TE-5
Primary Tissue
Esophagus
Tissue Diagnosis
Carcinoma Squamous Cell

Attributes by original data submitter

Sample

source_name
TE5
cell line
TE5
cell type
Esophageal squamous carcinoma cells
chip antibody
SOX2 [AF2018 (R&D System), ab59776 (Abcam) or 3579S (Cell Signaling Technology)]

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Standard Illumina library preparation protocol

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
22349786
Reads aligned (%)
87.2
Duplicates removed (%)
6.5
Number of peaks
874 (qval < 1E-05)

hg38

Number of total reads
22349786
Reads aligned (%)
89.0
Duplicates removed (%)
5.3
Number of peaks
684 (qval < 1E-05)

Base call quality data from DBCLS SRA